Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 157 of 344
Found at i:52365966 original size:98 final size:97
Alignment explanation
Indices: 52365812--52365996 Score: 239
Period size: 98 Copynumber: 1.9 Consensus size: 97
52365802 GCACATTAAA
* * * *
52365812 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGCCGATGCCGTATCCC
1 GTCGATGACATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGACCGATG-CATATCCC
52365877 AAACAGGTCTTACACTAGCTCTCATCTATTGCT
65 AAACAGGTCTTACACTAGCTCTCATCTATTGCT
* * * *
52365910 GTCGATGACATGTTCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGACTGATGCATGTCC
1 GTCGATGACATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGACCGATGCATATCC
* *
52365973 CAGACATGTCTTACACTAGCTCTC
64 CAAACAGGTCTTACACTAGCTCTC
52365997 GTCTCAAAGC
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
97 28 0.37
98 46 0.61
99 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (97 bp):
GTCGATGACATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGACCGATGCATATCCCA
AACAGGTCTTACACTAGCTCTCATCTATTGCT
Found at i:52370175 original size:15 final size:15
Alignment explanation
Indices: 52370152--52370192 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
52370142 GTTTTTCTTT
* *
52370152 CAACTATAACTATTC
1 CAACAATAACTACTC
52370167 CAACAATAACTACTC
1 CAACAATAACTACTC
*
52370182 CAACAGTAACT
1 CAACAATAACT
52370193 TTTTCAACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.24
Consensus pattern (15 bp):
CAACAATAACTACTC
Found at i:52370318 original size:7 final size:7
Alignment explanation
Indices: 52370306--52370385 Score: 56
Period size: 7 Copynumber: 11.6 Consensus size: 7
52370296 TCTAAATTCC
52370306 CAATCTT
1 CAATCTT
52370313 CAATCTT
1 CAATCTT
* *
52370320 TAATCCT
1 CAATCTT
*
52370327 CAGT-TT
1 CAATCTT
*
52370333 CAATATT
1 CAATCTT
*
52370340 CAATATT
1 CAATCTT
*
52370347 CAATTTT
1 CAATCTT
*
52370354 CAATTTT
1 CAATCTT
52370361 CAAT-TT
1 CAATCTT
*
52370367 CAAATTTT
1 C-AATCTT
*
52370375 CAATCCT
1 CAATCTT
52370382 CAAT
1 CAAT
52370386 TATTTTTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
6 7 0.11
7 51 0.84
8 3 0.05
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.45
Consensus pattern (7 bp):
CAATCTT
Found at i:52370356 original size:21 final size:21
Alignment explanation
Indices: 52370330--52370378 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
52370320 TAATCCTCAG
52370330 TTTCAATATTCAATATTC-AAT
1 TTTCAATATTCAAT-TTCAAAT
*
52370351 TTTCAATTTTCAATTTCAAAT
1 TTTCAATATTCAATTTCAAAT
52370372 TTTCAAT
1 TTTCAAT
52370379 CCTCAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTCAATATTCAATTTCAAAT
Found at i:52370386 original size:14 final size:14
Alignment explanation
Indices: 52370306--52370386 Score: 69
Period size: 14 Copynumber: 5.9 Consensus size: 14
52370296 TCTAAATTCC
52370306 CAATCTTCAATCTTT
1 CAATCTTCAAT-TTT
* *
52370321 -AATCCTC-AGTTT
1 CAATCTTCAATTTT
* *
52370333 CAATATTCAATATT
1 CAATCTTCAATTTT
*
52370347 CAATTTTCAATTTT
1 CAATCTTCAATTTT
52370361 CAAT-TTCAAATTTT
1 CAATCTTC-AATTTT
*
52370375 CAATCCTCAATT
1 CAATCTTCAATT
52370387 ATTTTTTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
12 3 0.06
13 9 0.17
14 39 0.74
15 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.01, T:0.46
Consensus pattern (14 bp):
CAATCTTCAATTTT
Found at i:52372198 original size:63 final size:63
Alignment explanation
Indices: 52372113--52372236 Score: 142
Period size: 63 Copynumber: 2.0 Consensus size: 63
52372103 GAATCACAAC
* * * * *
52372113 ATGCACACTCATTCCCCACATCATCACCTTCAA-TTCTGATTTATTTTACACAACCACCATAAT
1 ATGCACAATCATTCCCCACATCAACACATTCAACATC-AATTTATTTTACACAACCACCATAAT
*** * *
52372176 ATGCACAATCATTCCTTGCATCAACACATTTAACATCAATTTATTTTACACAAGCACCATA
1 ATGCACAATCATTCCCCACATCAACACATTCAACATCAATTTATTTTACACAACCACCATA
52372237 GCACGCGCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 48 0.96
64 2 0.04
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (63 bp):
ATGCACAATCATTCCCCACATCAACACATTCAACATCAATTTATTTTACACAACCACCATAAT
Found at i:52380624 original size:108 final size:109
Alignment explanation
Indices: 52380434--52380651 Score: 429
Period size: 108 Copynumber: 2.0 Consensus size: 109
52380424 CCGAGTCCTC
52380434 TGTCGCCTCGATCCGTCTAAGCCTGAGGATTTCCTACACAGTTAACAGATGGGTGAGTTTACGAA
1 TGTCGCCTCGATCCGTCTAAGCCTGAGGATTTCCTACACAGTTAACAGATGGGTGAGTTTACGAA
52380499 AACTCAGTATGTGAAATCCCATAACAGCAAACAACCAGTGTAAA
66 AACTCAGTATGTGAAATCCCATAACAGCAAACAACCAGTGTAAA
52380543 TGTCGCCTCGATCCGT-TAAGCCTGAGGATTTCCTACACAGTTAACAGATGGGTGAGTTTACGAA
1 TGTCGCCTCGATCCGTCTAAGCCTGAGGATTTCCTACACAGTTAACAGATGGGTGAGTTTACGAA
52380607 AACTCAGTATGTGAAATCCCATAACAGCAAACAACCAGTGTAAA
66 AACTCAGTATGTGAAATCCCATAACAGCAAACAACCAGTGTAAA
52380651 T
1 T
52380652 ATAGTCTGGG
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 93 0.85
109 16 0.15
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (109 bp):
TGTCGCCTCGATCCGTCTAAGCCTGAGGATTTCCTACACAGTTAACAGATGGGTGAGTTTACGAA
AACTCAGTATGTGAAATCCCATAACAGCAAACAACCAGTGTAAA
Found at i:52387326 original size:27 final size:27
Alignment explanation
Indices: 52387296--52387493 Score: 211
Period size: 27 Copynumber: 7.3 Consensus size: 27
52387286 TACTGCAATG
* *
52387296 CCCTCGATTTGTAGAATTACCACTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
52387323 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
52387350 CCCTCGATTTACAAAATTA-CAGTTTTA
1 CCCTCGATTTATAGAATTACCA-TTTTA
*
52387377 CTCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
52387404 CCCTCGATTTACAGAGTTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
52387431 CCCTCAATTTAAAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
52387458 CCCTC-AGTTTACAAAACTACTATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
52387485 CCCTCGATT
1 CCCTCGATT
52387494 GTGAAATTAC
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.01
27 139 0.97
28 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:52387411 original size:81 final size:81
Alignment explanation
Indices: 52387296--52387493 Score: 256
Period size: 81 Copynumber: 2.4 Consensus size: 81
52387286 TACTGCAATG
* * * *
52387296 CCCTCGATTTGTAGAATTACCACTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
*
52387361 CAAAATTA-CAGTTTTA
66 AAAAATTACCA-TTTTA
* * *
52387377 CTCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAGTTACCGTTTTACCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
52387442 AAAAATTACCATTTTA
66 AAAAATTACCATTTTA
* * * *
52387458 CCCTC-AGTTTACAAAACTACTATTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
52387494 GTGAAATTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 99 0.97
82 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
AAAAATTACCATTTTA
Found at i:52387535 original size:27 final size:27
Alignment explanation
Indices: 52387492--52387651 Score: 203
Period size: 27 Copynumber: 5.9 Consensus size: 27
52387482 TTACCCTCGA
* * *
52387492 TTGTGAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
52387519 TTATAAAATCACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* * *
52387546 TTGTAAAATTACTAGAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* * *
52387573 TTATAAAATTACTAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGGT
52387600 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
52387627 TTGTAAAATTATCAAAATACTCCTG
1 TTGTAAAATTACCAAAATACCCCTG
52387652 TAGGGTAGAA
Statistics
Matches: 114, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:52387567 original size:54 final size:54
Alignment explanation
Indices: 52387492--52387651 Score: 230
Period size: 54 Copynumber: 3.0 Consensus size: 54
52387482 TTACCCTCGA
* *
52387492 TTGTGAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGT
1 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGT
* * *
52387546 TTGTAAAATTACTAGAATACCCTTGGTTTATAAAATTACTAAAATACCCCTAGT
1 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGT
* * * * *
52387600 TTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACTCCTG
1 TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTG
52387652 TAGGGTAGAA
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 93 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
TTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGT
Found at i:52387646 original size:81 final size:81
Alignment explanation
Indices: 52387497--52387646 Score: 239
Period size: 81 Copynumber: 1.9 Consensus size: 81
52387487 CTCGATTGTG
* * *
52387497 AAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAGA
1 AAATTACTAAAATACCCCTAGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAA
52387562 ATACCCTTGGTTTATA
66 ATACCCTTGGTTTATA
* *
52387578 AAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCAA
1 AAATTACTAAAATACCCCTAGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACT-AA
52387642 AATAC
65 AATAC
52387647 TCCTGTAGGG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 1 0.02
81 62 0.98
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACTAAAATACCCCTAGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAA
ATACCCTTGGTTTATA
Found at i:52387663 original size:27 final size:27
Alignment explanation
Indices: 52387642--52388286 Score: 853
Period size: 27 Copynumber: 23.9 Consensus size: 27
52387632 AAATTATCAA
* * *
52387642 AATACTCCTGTAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
*
52387669 AATACCCCTGTAGGGTAGAATTATCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
*
52387696 AATACCCCTGTAGGGTAGAATTACCAG
1 AATACCCCTGTAGGGTAGAATTACCGG
**
52387723 AATACCCCTGTAGGGTAGAATTACCAA
1 AATACCCCTGTAGGGTAGAATTACCGG
* **
52387750 AATACCCCTGTAGGGTAGAATTATCAA
1 AATACCCCTGTAGGGTAGAATTACCGG
* * *
52387777 AATACCCCTATAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
* *
52387804 AATACCGCTGTAGGGCAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
* * *
52387831 AATACCCTTGTAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
52387858 AATACCCCTGTAGGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
52387885 AATACCCCTGTAGGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
*
52387912 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGG
* * * *
52387939 AATACCCTTGCAGGGTAGAAATACCAG
1 AATACCCCTGTAGGGTAGAATTACCGG
* **
52387966 AATACCCCTGTAGGGTAGAATTATCAA
1 AATACCCCTGTAGGGTAGAATTACCGG
* * *
52387993 AATACCCCTATAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
52388020 AATACCCCTGTAGGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
* * *
52388047 AATACCCTTGTAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
52388074 AATACCCCTGTAGGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
*
52388101 AATACCCCTGTAAGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
* *
52388128 AATACCCCTGTAAGGTAGAATTACTGG
1 AATACCCCTGTAGGGTAGAATTACCGG
*
52388155 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGG
* * * **
52388182 AATACCCTTGTAGGGTAGAAATATCAA
1 AATACCCCTGTAGGGTAGAATTACCGG
* *
52388209 AATACCCCTGTAGGGTAGAATTACTGA
1 AATACCCCTGTAGGGTAGAATTACCGG
52388236 AATACCCCTGTAGGGTAGAATTACC-G
1 AATACCCCTGTAGGGTAGAATTACCGG
* * *
52388262 AGATA-CCTTGTTGGGTAAAATTACC
1 A-ATACCCCTGTAGGGTAGAATTACC
52388287 ATTTTGCCCC
Statistics
Matches: 553, Mismatches: 64, Indels: 3
0.89 0.10 0.00
Matches are distributed among these distances:
26 18 0.03
27 535 0.97
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAGAATTACCGG
Found at i:52390536 original size:85 final size:85
Alignment explanation
Indices: 52390393--52390571 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
52390383 TGGCCGCCAT
52390393 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
52390458 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
52390478 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
52390543 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
52390563 GGGCATGGG
1 GAGCATGGG
52390572 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:52392810 original size:47 final size:47
Alignment explanation
Indices: 52392759--52393218 Score: 733
Period size: 47 Copynumber: 9.7 Consensus size: 47
52392749 AGGATTCTAA
* *
52392759 GTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGAT
52392806 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
*
52392855 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGAT
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
*
52392904 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
52392951 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
52392998 GTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
52393045 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
52393092 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * * *
52393139 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
52393186 GTGATGGATGTGAAAGTGTTTAAATGTGATAAG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAG
52393219 TCCCGAAGGG
Statistics
Matches: 389, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 294 0.76
49 94 0.24
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
Found at i:52394803 original size:27 final size:27
Alignment explanation
Indices: 52394773--52394970 Score: 220
Period size: 27 Copynumber: 7.3 Consensus size: 27
52394763 TACTGCAATG
**
52394773 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
52394800 CCCTCGATTTACAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
*
52394827 CCCTCGATTTACAAAATTA-CAGTTTTA
1 CCCTCGATTTACAGAATTACCA-TTTTA
* * * *
52394854 ACCTTGATTTATAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
52394881 CCCTCGATTTACAGAGTTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
52394908 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * **
52394935 CCCT-TAGTTTACAAAATTACTGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
52394962 CCCTCGATT
1 CCCTCGATT
52394971 GTGAAATTAC
Statistics
Matches: 142, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 138 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:52394888 original size:81 final size:81
Alignment explanation
Indices: 52394778--52394970 Score: 282
Period size: 81 Copynumber: 2.4 Consensus size: 81
52394768 CAATGCCCTC
* *
52394778 GATTTGTAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAA
1 GATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAA
52394843 TTA-CAGTTTTAACCTT
66 TTACCA-TTTTAACCTT
* *
52394859 GATTTATAGAATTACTATTTTACCCTCGATTTACAGAGTTACCGTTTTACCCTCGATTTACAAAA
1 GATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAA
*
52394924 TTACCATTTTACCCTT
66 TTACCATTTTAACCTT
* * *
52394940 -AGTTTACAAAATTACTGTTTTACCCTCGATT
1 GA-TTTATAGAATTACTATTTTACCCTCGATT
52394971 GTGAAATTAC
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
80 1 0.01
81 99 0.97
82 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
GATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAA
TTACCATTTTAACCTT
Found at i:52395012 original size:27 final size:27
Alignment explanation
Indices: 52394982--52395127 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
52394972 TGAAATTACT
* *
52394982 AAAATACCCTTGGTTTATAAAATCACC
1 AAAATACCCCTGGTTTGTAAAATCACC
* *
52395009 AAAATACCCCTGGTTTGTAAAATTACT
1 AAAATACCCCTGGTTTGTAAAATCACC
* * *
52395036 AGAATACCCTTGGTTTATAAAATCACC
1 AAAATACCCCTGGTTTGTAAAATCACC
* *
52395063 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATACCCCTGGTTTGTAAAATCACC
* **
52395090 AAAATACCCCTGGTTTGTAAAATTATT
1 AAAATACCCCTGGTTTGTAAAATCACC
52395117 AAAATACCCCT
1 AAAATACCCCT
52395128 ATAGGGTAGA
Statistics
Matches: 102, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATACCCCTGGTTTGTAAAATCACC
Found at i:52395140 original size:27 final size:27
Alignment explanation
Indices: 52395118--52395708 Score: 731
Period size: 27 Copynumber: 22.0 Consensus size: 27
52395108 AAAATTATTA
* *
52395118 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52395145 CAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52395172 GAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52395199 AAATACCCCTATAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52395226 AAATACCCCTGTAGGGTAGAATTATCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52395253 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
52395280 CAATACCGCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52395307 GAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52395334 GAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
52395361 AAATATCCTTGCAGGGTAGAAATACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52395387 AGAATACCCCTGTAGGGTAGAATTATCA
1 A-AATACCCCTGTAGGGTAGAATTACCG
* *
52395415 AAATACCCCTATAGGGTAGAATTATC-
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52395441 ACAATA-CCCTGTAGGGTAGAATTACTG
1 A-AATACCCCTGTAGGGTAGAATTACCG
* * *
52395468 GAATACCCTTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52395495 CAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52395522 GAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52395549 GAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
52395576 GAATACCCATGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
52395603 AAATACCCTTGTAGGGTAGAAATATCA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52395630 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
52395657 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
52395684 AGATA-CCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
52395709 ATTTTGCCCC
Statistics
Matches: 498, Mismatches: 61, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
26 39 0.08
27 458 0.92
28 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:52395141 original size:54 final size:54
Alignment explanation
Indices: 52394975--52395681 Score: 342
Period size: 54 Copynumber: 13.1 Consensus size: 54
52394965 TCGATTGTGA
* * * * ** *
52394975 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGT-TTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GTAGGGTAG
* * * * * ** *
52395029 AATTACTAGAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGT-TTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GTAGGGTAG
** *
52395083 AATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAG
* ** ** * **
52395137 AATTATCGCAATACCCCT-GTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * ** *
52395191 AATTACCGAAATACCCCT-ATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * ** * * ** *
52395245 AATTATCAAAATACCCCT-ATAGGGTAGAATTATCGCAATACCGCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
*** * ** * **
52395299 AATTACTGGAATA-CCCTTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * * **** *
52395353 AATTACCGAAATATCCTTGCAGGGTAGAAA-TACCAGAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGTTTGTA-AAATTACCAAAATACCCCTGTAGGGTAG
* * ** * * *
52395407 AATTATCAAAATACCCCT-ATAGGGTAGAATTATCACAATA-CCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
*** * ** * * **
52395460 AATTACTGGAATA-CCCTTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
** ** * ** *
52395514 AATTACCGGAATACCCCT-GTAAGGTAGAATTACCGGAATACCCCTGTAAGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
** * ** * * *
52395568 AATTACCGGAATACCCAT-GTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * ** * **
52395622 AAATATCAAAATACCCCT-GTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGTAGGGTAG
52395676 AATTAC
1 AATTAC
52395682 TGAGATACCT
Statistics
Matches: 558, Mismatches: 85, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
52 4 0.01
53 51 0.09
54 494 0.89
55 9 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAG
Found at i:52395150 original size:81 final size:81
Alignment explanation
Indices: 52394999--52395667 Score: 281
Period size: 81 Copynumber: 8.3 Consensus size: 81
52394989 CCTTGGTTTA
* * * * *
52394999 TAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAGAATA-CCCT-T-GGTTTATAA-AATC
1 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTATAGG-GTAGAATTATC
**
52395060 ACCAAAATACCCCTAGT-TTG
65 A-C--AATACCCCT-GTAGGG
* *
52395080 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTATAGGGTAGAATTATCG
1 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTATAGGGTAGAATTATCA
52395145 CAATACCCCTGTAGGG
66 CAATACCCCTGTAGGG
* ** ** * ** *
52395161 TAGAATTACCGGAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACC
1 TAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCCTATAGGGTAGAATTATC
*
52395225 AAAATACCCCTGTAGGG
65 ACAATACCCCTGTAGGG
* * * ** * ** * *
52395242 TAGAATTATCAAAATACCCCT-ATAGGGTAGAATTA-TCGCAATACCGCTGTAGGGTAGAATTA-
1 TAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACT-AAAATACCCCTATAGGGTAGAATTAT
** *
52395304 CTGGAATACCCTTGTAGGG
64 C-ACAATACCCCTGTAGGG
* ** ** * ** * * ** * *
52395323 TAGAATTACCGGAATACCCCT-GTAGGGTAGAATTACCGAAATATCCTTGCAGGGTAGAAATACC
1 TAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCCTATAGGGTAGAATTATC
*
52395387 AGAATACCCCTGTAGGG
65 ACAATACCCCTGTAGGG
* * * ** * * *
52395404 TAGAATTATCAAAATACCCCT-ATAGGGTAGAATTA-TCACAATA-CCCTGTAGGGTAGAATTA-
1 TAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACT-AAAATACCCCTATAGGGTAGAATTAT
** *
52395465 CTGGAATACCCTTGTAGGG
64 C-ACAATACCCCTGTAGGG
* * ** ** * *** * * *
52395484 TAGAATTATCGCAATACCCCT-GTAGGGTAGAATTACCGGAATACCCCTGTAAGGTAGAATTACC
1 TAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCCTATAGGGTAGAATTATC
** *
52395548 GGAATACCCCTGTAAGG
65 ACAATACCCCTGTAGGG
* ** * ** * ** * * *
52395565 TAGAATTACCGGAATACCCAT-GTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATC
1 TAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCCTATAGGGTAGAATTATC
*
52395629 AAAATACCCCTGTAGGG
65 ACAATACCCCTGTAGGG
* **
52395646 TAGAATTACTGAAATACCCCTG
1 TAAAATTACCAAAATACCCCTG
52395668 TAGGGTAGAA
Statistics
Matches: 492, Mismatches: 80, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.00
80 71 0.14
81 403 0.82
82 6 0.01
83 6 0.01
84 5 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTATAGGGTAGAATTATCA
CAATACCCCTGTAGGG
Found at i:52396140 original size:19 final size:19
Alignment explanation
Indices: 52396112--52396176 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 19
52396102 CATTCACATT
*
52396112 CTGATTTTGATTCTGTTAC
1 CTGATATTGATTCTGTTAC
52396131 CTGATATTGATTCTG--A-
1 CTGATATTGATTCTGTTAC
52396147 -T--T-TTGATTCTGTTAC
1 CTGATATTGATTCTGTTAC
*
52396162 CTGATACTGATTCTG
1 CTGATATTGATTCTG
52396177 ATTCTGATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
12 9 0.24
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 22 0.59
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.49
Consensus pattern (19 bp):
CTGATATTGATTCTGTTAC
Found at i:52396147 original size:6 final size:6
Alignment explanation
Indices: 52396109--52396196 Score: 67
Period size: 6 Copynumber: 14.3 Consensus size: 6
52396099 TTGCATTCAC
* *
52396109 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
*
52396158 -TTACCTG ATACTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
52396197 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
5 6 0.09
6 50 0.76
7 7 0.11
8 2 0.03
9 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:52396147 original size:31 final size:31
Alignment explanation
Indices: 52396109--52396187 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
52396099 TTGCATTCAC
*
52396109 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
52396140 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
52396171 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
52396188 AGTTCTGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:52405037 original size:22 final size:22
Alignment explanation
Indices: 52404991--52405044 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
52404981 TGTCCTTGGT
* *
52404991 TCACACAGGCGTGTGCCTCTTC
1 TCACACAGGCGTGTGCCCCTCC
52405013 TCACAC-GAGCGTGTGCCCCTCC
1 TCACACAG-GCGTGTGCCCCTCC
*
52405035 TCATACAGGC
1 TCACACAGGC
52405045 ATTTGACCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.17, C:0.39, G:0.22, T:0.22
Consensus pattern (22 bp):
TCACACAGGCGTGTGCCCCTCC
Found at i:52407229 original size:64 final size:64
Alignment explanation
Indices: 52407148--52407331 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
52407138 AGACATTATG
* *
52407148 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * * *
52407212 ATGTAGCTAGGTCGCATGCATGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
52407277 AA
63 AA
* * * *
52407279 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
52407332 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:52429526 original size:47 final size:46
Alignment explanation
Indices: 52429426--52429592 Score: 217
Period size: 46 Copynumber: 3.6 Consensus size: 46
52429416 TGATGTCATA
* * *
52429426 GTATCTTTCAACTATGGTTTTACTCGTTTTCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATG
* *
52429472 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTT-CTGTCATGTTGCCATG
** ** * *
52429519 GTATCTTTCAACCACAGTCTTACTCATTTAATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATG
*
52429565 ATATCTTTCAACCATGGTCTTACTCATT
1 GTATCTTTCAACCATGGTCTTACTCATT
52429593 CAACCATGGT
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 63 0.61
47 41 0.39
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATG
Found at i:52429596 original size:20 final size:20
Alignment explanation
Indices: 52429571--52429612 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
52429561 CATGATATCT
*
52429571 TTCAACCATGGTCTTACTCA
1 TTCAACCATGGTCTTACACA
52429591 TTCAACCATGGTCTTACACA
1 TTCAACCATGGTCTTACACA
52429611 TT
1 TT
52429613 TCATATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.36
Consensus pattern (20 bp):
TTCAACCATGGTCTTACACA
Found at i:52429619 original size:66 final size:65
Alignment explanation
Indices: 52429525--52429657 Score: 194
Period size: 66 Copynumber: 2.0 Consensus size: 65
52429515 CATGGTATCT
* *
52429525 TTCAACCACAGTCTTACTCATTTAATATCACGTTGCCATGATATCTTTCAACCATGGTCTTACTC
1 TTCAACCACAGTCTTACACATTTAATATCACGTTGCCATGATATCTTTCAACCATGGT-TTACAC
52429590 A
65 A
** * * *
52429591 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTTTACACA
1 TTCAACCACAGTCTTACACATTTAATATCACGTTGCCATGATATCTTTCAACCATGGTTTACACA
52429656 TT
1 TT
52429658 TCATATCAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
65 8 0.13
66 52 0.87
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (65 bp):
TTCAACCACAGTCTTACACATTTAATATCACGTTGCCATGATATCTTTCAACCATGGTTTACACA
Found at i:52429660 original size:45 final size:46
Alignment explanation
Indices: 52429591--52429758 Score: 302
Period size: 46 Copynumber: 3.7 Consensus size: 46
52429581 GTCTTACTCA
*
52429591 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
52429637 TTCAACCATGGT-TTACACATTTCATATCAGGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
*
52429682 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
*
52429728 TTCAACCATGGTCTTACACATTCCATATCAG
1 TTCAACCATGGTCTTACACATTTCATATCAG
52429759 ATAGCACACT
Statistics
Matches: 118, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
45 44 0.37
46 74 0.63
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (46 bp):
TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
Found at i:52429683 original size:111 final size:113
Alignment explanation
Indices: 52429478--52429703 Score: 330
Period size: 111 Copynumber: 2.0 Consensus size: 113
52429468 CATGGTATCT
** * * *
52429478 TTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCACAGTCTTACT
1 TTCAACCATGGTCTTACACATTTTCACATCATGTTGCCATGGTATCTTTCAACCACAGTCTTACA
*
52429543 CATTTAATATCACGTTGCCATGATATCTTTCAACCATGGTCTTACTCA
66 CATTTAATATCACGTTGCCATGATATCTTTCAACCATGGTCTTACACA
* **
52429591 TTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGT-TTACA
1 TTCAACCATGGTCTTACACATTTTCACATCATGTTGCCATGGTATCTTTCAACCACAGTCTTACA
* * *
52429654 CATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 CATTTAATATCACGTTGCCATGATATCTTTCAACCATGGTCTTACACA
52429702 TT
1 TT
52429704 TCATATCAGG
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 50 0.50
112 33 0.33
113 18 0.18
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.38
Consensus pattern (113 bp):
TTCAACCATGGTCTTACACATTTTCACATCATGTTGCCATGGTATCTTTCAACCACAGTCTTACA
CATTTAATATCACGTTGCCATGATATCTTTCAACCATGGTCTTACACA
Found at i:52429720 original size:157 final size:159
Alignment explanation
Indices: 52429459--52429750 Score: 446
Period size: 157 Copynumber: 1.8 Consensus size: 159
52429449 TCGTTTTCTG
** * * *
52429459 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATC
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCACATCAGGTTGCCATGGTATC
*
52429524 TTTCAACCACAGTCTTACTCATTTAATATCACGTTGCCAT-GATATCTTTCAACCATGGTCTTAC
66 TTTCAACCACAGTCTTACACATTTAATATCACGTTGCCATAG-TATCTTTCAACCATGGTCTTAC
*
52429588 TCATTCAACCATGGTCTTACACATTTCATA
130 ACATTCAACCATGGTCTTACACATTTCATA
*
52429618 TCATGTTGCCATGGTATCTTTCAACCATGGT-TTACACA-TTTCATATCAGGTTGCCATGGTATC
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCACATCAGGTTGCCATGGTATC
** * *
52429681 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACA
66 TTTCAACCACAGTCTTACACATTTAATATCACGTTGCCATAGTATCTTTCAACCATGGTCTTACA
52429746 CATTC
131 CATTC
52429751 CATATCAGAT
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
157 83 0.69
158 6 0.05
159 31 0.26
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (159 bp):
TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCACATCAGGTTGCCATGGTATC
TTTCAACCACAGTCTTACACATTTAATATCACGTTGCCATAGTATCTTTCAACCATGGTCTTACA
CATTCAACCATGGTCTTACACATTTCATA
Found at i:52429726 original size:91 final size:92
Alignment explanation
Indices: 52429591--52429758 Score: 302
Period size: 91 Copynumber: 1.8 Consensus size: 92
52429581 GTCTTACTCA
* *
52429591 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGT-TTACAC
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
*
52429655 ATTTCATATCAGGTTGCCATGGTATCT
66 ATTCCATATCAGGTTGCCATGGTATCT
52429682 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
52429747 ATTCCATATCAG
66 ATTCCATATCAG
52429759 ATAGCACACT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 56 0.77
92 17 0.23
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (92 bp):
TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
ATTCCATATCAGGTTGCCATGGTATCT
Found at i:52433560 original size:42 final size:42
Alignment explanation
Indices: 52433432--52433560 Score: 109
Period size: 42 Copynumber: 3.0 Consensus size: 42
52433422 CTCATAGCAC
* * * * **
52433432 CATACCAATGCCATGTCCGAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
* **
52433474 CATATCAATGCCA-ATTGCCCAGCTATGGTCTTTGAC-AAAGTCT
1 CATATCAATGCCATA-T-CCCAGATATGGTCTTACACGAAA-TCT
* * *
52433517 CATATCGATGCCATATCCCAGATGTGGTCTTACACGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
52433559 CA
1 CA
52433561 AATAACCCTA
Statistics
Matches: 67, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
42 34 0.51
43 32 0.48
44 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
Found at i:52436527 original size:47 final size:48
Alignment explanation
Indices: 52436400--52436560 Score: 136
Period size: 45 Copynumber: 3.4 Consensus size: 48
52436390 AATTGACGGT
** * *
52436400 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGG
1 TAAGGATACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGA
* * * * ** *
52436445 CAAAGATTCCGTGTAAGACCATGTCAAGACATGGCATCGGCA-T-TGA
1 TAAGGATACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGA
** *
52436491 TTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGA
1 -TAAGGA-TACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGA
52436540 TAAGGATACCATGTAAGACCA
1 TAAGGATACCATGTAAGACCA
52436561 TGTTTGGAAC
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
45 35 0.38
46 1 0.01
47 34 0.37
48 21 0.23
49 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (48 bp):
TAAGGATACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGA
Found at i:52436595 original size:47 final size:47
Alignment explanation
Indices: 52436535--52436656 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
52436525 GCATTGGCAC
52436535 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
52436582 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
52436629 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGATAAGGATACCATGTAAGACCATG
52436657 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (47 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:52436699 original size:54 final size:54
Alignment explanation
Indices: 52436635--52436818 Score: 221
Period size: 55 Copynumber: 3.4 Consensus size: 54
52436625 TTGGTAAGAT
* *
52436635 AAGGATATCATGTAAGACCATGCCAAGGCATGGCACTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * * *
52436689 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGAA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGG-C
* * * *
52436745 AAGG-TCTCATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTC-ATAAGAC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
52436797 AAGGATA-CAATGTAAGACCATG
1 AAGGATATC-ATGTAAGACCATG
52436819 TTTAGAACAT
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
52 5 0.05
53 19 0.17
54 40 0.37
55 41 0.38
56 4 0.04
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:52436758 original size:55 final size:53
Alignment explanation
Indices: 52436635--52436818 Score: 187
Period size: 54 Copynumber: 3.4 Consensus size: 53
52436625 TTGGTAAGAT
* * * *
52436635 AAGGATATCATGTAAGACCATGCCAAGGCATGGCACTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATG-CAAGGCATGGCATTGATGAGTTCTATAAGGA
* *
52436689 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGAA
1 AAGGAAATCATGTAAGACCATG-CAAGGCATGGCATTGATGAGTT-CTATAAGG-A
** *
52436745 AAGG-TCTCATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTC-ATAA-GA
1 AAGGAAATCATGTAAGACCATGC-AAGGCATGGCATTGATGAGTTCTATAAGGA
*
52436796 CAAGGATA-CAATGTAAGACCATG
1 -AAGGAAATC-ATGTAAGACCATG
52436819 TTTAGAACAT
Statistics
Matches: 111, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
51 1 0.01
52 6 0.05
53 18 0.16
54 41 0.37
55 41 0.37
56 4 0.04
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGAAATCATGTAAGACCATGCAAGGCATGGCATTGATGAGTTCTATAAGGA
Found at i:52437138 original size:53 final size:54
Alignment explanation
Indices: 52436857--52437137 Score: 361
Period size: 53 Copynumber: 5.2 Consensus size: 54
52436847 GATATCATGT
* *
52436857 ATTGATAAGTTCGATAAGGCAAGGAAATCATGTAAGACCATGCTAAGGCATGGC
1 ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGC
52436911 A-TGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGC
1 ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGC
* *
52436964 ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGC
1 ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGC
* *** *
52437018 ATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGTATGGC
1 ATTGATAAGTT-CTATAAGGC-AAGGAAATCATGTAAGACCATGCCAAGGCATGGC
* * * * * * *
52437073 ATTGGTGAGTTC-ATAAGGCAAGGATACCTTGTAAGACCATGTCAAGACATGGC
1 ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGC
* *
52437126 AATGGTAAGTTC
1 ATTGATAAGTTC
52437138 AAAAAGGAAA
Statistics
Matches: 204, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
52 4 0.02
53 92 0.45
54 62 0.30
55 42 0.21
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (54 bp):
ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCCAAGGCATGGC
Found at i:52440741 original size:16 final size:15
Alignment explanation
Indices: 52440717--52440746 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52440707 AACTATTTTA
52440717 TTACAAATTTCACTC
1 TTACAAATTTCACTC
52440732 TTACATAATTTCACT
1 TTACA-AATTTCACT
52440747 TACTTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:52441081 original size:50 final size:50
Alignment explanation
Indices: 52440946--52441239 Score: 256
Period size: 50 Copynumber: 5.8 Consensus size: 50
52440936 AACCGAAGCT
* * ** *
52440946 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACC-AACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * *
52440995 AT-TCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATCT-GATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * *
52441045 ATCTGATACACGTAGTAGCTTGCACTTAGTACTACACATGTGA-TTGAA-G
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AACC
* * * * * * * *
52441094 TTGTTGGGTACGCATAGTAGCCTGCACTTAGTAATATACATGCGACCTAACT
1 AT-CT-GATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * *
52441146 ATCT-AGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACC
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACC
* * *
52441198 ATCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTG
52441240 TTCTCACAAT
Statistics
Matches: 195, Mismatches: 38, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 42 0.22
50 75 0.38
51 36 0.18
52 40 0.21
53 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:52441141 original size:101 final size:101
Alignment explanation
Indices: 52440999--52441188 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 101
52440989 CCAACAATTC
* *
52440999 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT-GATACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTAATACACACGCGACCTAACCATCTAG-TACACGTAGTAG
* * *
52441063 CTTGCACTTAGTACTACACATGTGATTGAAGTTGTTG
65 CCTACACTTAGTACTACACACGTGATTGAAGTTGTTG
* * *
52441100 GGTACGCATAGTAGCCTGCACTTAGTAATATACATGCGACCTAACTATCTAGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTAATACACACGCGACCTAACCATCTAGTACACGTAGTAGC
52441165 CTACACTTAGTACTACACACGTGA
66 CTACACTTAGTACTACACACGTGA
52441189 CCTAAAACCA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 79 0.99
102 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTGCACTTAGTAATACACACGCGACCTAACCATCTAGTACACGTAGTAGC
CTACACTTAGTACTACACACGTGATTGAAGTTGTTG
Found at i:52441238 original size:153 final size:150
Alignment explanation
Indices: 52440950--52441239 Score: 420
Period size: 151 Copynumber: 1.9 Consensus size: 150
52440940 GAAGCTATCT
* * *
52440950 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATTCGGTACGCATAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTAATACACATGCAACCAACAATTCAGTACACATAGTAGCC
* * * * *
52441015 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTAC
66 TACACTTAGTACTACACACGTGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTACTAC
52441080 ACATGTGATTGAAGTTGTTG
131 ACATGTGATTGAAGTTGTTG
* * * *
52441100 GGTACGCATAGTAGCCTGCACTTAGTAATATACATGCGACCTAACTA-TCTAGTACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTAATACACATGCAACC-AACAATTC-AGTACACATAGTAG
*
52441164 CCTACACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACATAGTAGCCTGCACATAGTA
64 CCTACACTTAGTACTACACACGTGACCT--AACCATCTGAAACACATAGTAGCCTGCACATAGTA
52441229 CTACACATGTG
127 CTACACATGTG
52441240 TTCTCACAAT
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
150 40 0.33
151 42 0.34
153 41 0.33
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTAATACACATGCAACCAACAATTCAGTACACATAGTAGCC
TACACTTAGTACTACACACGTGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTACTAC
ACATGTGATTGAAGTTGTTG
Found at i:52447089 original size:30 final size:30
Alignment explanation
Indices: 52447055--52447114 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
52447045 GGAAAAATCA
52447055 ATGAATGAACTTGGATGCAAGAAGCTTAAT
1 ATGAATGAACTTGGATGCAAGAAGCTTAAT
52447085 ATGAATGAACTTGGATGCAAGAAGCTTAAT
1 ATGAATGAACTTGGATGCAAGAAGCTTAAT
52447115 GGCCTTGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (30 bp):
ATGAATGAACTTGGATGCAAGAAGCTTAAT
Found at i:52447811 original size:20 final size:20
Alignment explanation
Indices: 52447788--52447833 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
52447778 TAAGCTCGGT
52447788 TGAGCTCAAACAAGCTGAAA
1 TGAGCTCAAACAAGCTGAAA
** *
52447808 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACAAGCTGAAA
52447828 TGAGCT
1 TGAGCT
52447834 GGATGGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACAAGCTGAAA
Found at i:52447834 original size:10 final size:10
Alignment explanation
Indices: 52447800--52447834 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
52447790 AGCTCAAACA
52447800 AGCTGAAATG
1 AGCTGAAATG
*
52447810 AGCTCAAATG
1 AGCTGAAATG
*
52447820 AGCTGAATTG
1 AGCTGAAATG
52447830 AGCTG
1 AGCTG
52447835 GATGGAGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (10 bp):
AGCTGAAATG
Found at i:52450929 original size:35 final size:35
Alignment explanation
Indices: 52450834--52450952 Score: 114
Period size: 35 Copynumber: 3.4 Consensus size: 35
52450824 AGTCCATCTG
* * *
52450834 AAACACACCAATGCTTGGAAGAGCTAATCCCTCCA
1 AAACACACCAATACTTGTAAGAACTAATCCCTCCA
* * *
52450869 AAATACACCAAT-GTTCGTAAAAACTAATCCCTCCA
1 AAACACACCAATACTT-GTAAGAACTAATCCCTCCA
* * ** *
52450904 AAACACACCAATACTTATAAGAACTAGTCCAACCG
1 AAACACACCAATACTTGTAAGAACTAATCCCTCCA
*
52450939 AAACACAACAATAC
1 AAACACACCAATAC
52450953 AAAGAGTATA
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
34 2 0.03
35 64 0.94
36 2 0.03
ACGTcount: A:0.45, C:0.29, G:0.08, T:0.18
Consensus pattern (35 bp):
AAACACACCAATACTTGTAAGAACTAATCCCTCCA
Found at i:52464902 original size:47 final size:47
Alignment explanation
Indices: 52464839--52465435 Score: 817
Period size: 47 Copynumber: 12.6 Consensus size: 47
52464829 CCCTTCGGGA
* * * *
52464839 CTTATCACATTTATACACTTCCACATCCATCACATTGTCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
52464886 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
52464933 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGCC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
52464980 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
52465027 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGCCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
52465074 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
52465121 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
52465168 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
52465217 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
52465266 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
52465313 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52465360 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
52465409 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
52465436 TATTCAAATA
Statistics
Matches: 513, Mismatches: 31, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 376 0.73
49 135 0.26
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:52465106 original size:25 final size:25
Alignment explanation
Indices: 52465077--52465154 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
52465067 ATTCGGCCTT
52465077 ATCACACATACACATGTTCACATTC
1 ATCACACATACACATGTTCACATTC
* *** * *
52465102 ATCACA-TTGGTCA--TTCGGCCTT-
1 ATCACACATACACATGTTC-ACATTC
52465124 ATCACACATACACATGTTCACATTC
1 ATCACACATACACATGTTCACATTC
52465149 ATCACA
1 ATCACA
52465155 TTGGCCATTC
Statistics
Matches: 36, Mismatches: 12, Indels: 10
0.62 0.21 0.17
Matches are distributed among these distances:
22 9 0.25
23 6 0.17
24 6 0.17
25 15 0.42
ACGTcount: A:0.32, C:0.31, G:0.08, T:0.29
Consensus pattern (25 bp):
ATCACACATACACATGTTCACATTC
Found at i:52466829 original size:85 final size:85
Alignment explanation
Indices: 52466700--52466878 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
52466690 TATTTTATTG
*
52466700 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
52466765 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
52466785 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
52466850 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
52466870 CCCATGCTC
1 CCCATGCTC
52466879 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:52468192 original size:40 final size:40
Alignment explanation
Indices: 52468133--52468453 Score: 473
Period size: 40 Copynumber: 8.1 Consensus size: 40
52468123 CGAATACACG
* * * * *
52468133 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * ** * *
52468173 ACACCAACACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
52468213 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
52468253 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
52468293 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
52468333 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
52468373 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
52468413 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
52468452 TC
1 TC
52468454 GTCGAGACCT
Statistics
Matches: 257, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 253 0.98
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:52471083 original size:47 final size:47
Alignment explanation
Indices: 52471011--52471654 Score: 920
Period size: 47 Copynumber: 13.6 Consensus size: 47
52471001 CCCTTGGGGA
* * *
52471011 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52471058 CTTATCACATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
52471105 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
52471152 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
52471199 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
52471246 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
52471293 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
52471340 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
52471389 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
52471436 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
52471485 CTTATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
52471532 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52471579 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52471628 CTTCTCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
52471655 TATTCAAATA
Statistics
Matches: 560, Mismatches: 29, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 423 0.76
49 135 0.24
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:52471497 original size:143 final size:143
Alignment explanation
Indices: 52471011--52471654 Score: 923
Period size: 143 Copynumber: 4.5 Consensus size: 143
52471001 CCCTTGGGGA
* *
52471011 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
52471074 ACTTTCACATTCATCACATTGGTCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
* *
52471139 TTGGCCATTCGGC
131 TCGGCCATTAGGC
* * * *
52471152 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
* *
52471214 CA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
65 CACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
52471278 CATTGGCCATTCGGC
129 CATCGGCCATTAGGC
* *
52471293 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATA
52471355 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCAT
63 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCAT
52471419 CACATCGGCCATTAGGC
127 CACATCGGCCATTAGGC
* *
52471436 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * * *
52471501 ACTTTCACATTCATCATATCGGCTATTAGGCCTTATCACATATATACACT-TTCACATTCATCAC
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCAC
52471565 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
* *
52471579 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTCTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
52471644 ACTTTCACATT
66 ACTTTCACATT
52471655 TATTCAAATA
Statistics
Matches: 465, Mismatches: 27, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
140 2 0.00
141 178 0.38
143 241 0.52
144 2 0.00
145 41 0.09
146 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:52473049 original size:85 final size:85
Alignment explanation
Indices: 52472920--52473098 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
52472910 TATTTTATTG
*
52472920 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
52472985 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
52473005 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
52473070 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
52473090 CCCATGCTC
1 CCCATGCTC
52473099 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:52474267 original size:46 final size:49
Alignment explanation
Indices: 52474214--52474433 Score: 176
Period size: 46 Copynumber: 4.6 Consensus size: 49
52474204 TGTGTAAGGT
* *
52474214 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCCGGACAT-A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAC-GAGATGAGAGCC
* * * *
52474260 AGTGTAAGA-CATGTTTGGGACAT-GCATC-GACTACGAGAT-A-TGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTACGAGATGAGAGCC
* * * * *
52474304 AGTGTAAGATCATGTTTGGGACATGGCATTGG-C-ACGGATATGCAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAC-GAGATG--AGAGCC
* ** *
52474354 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-CGATGATGATCGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTACGA-GATGAGAGCC
52474403 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
52474434 ACACCTCACC
Statistics
Matches: 142, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
44 16 0.11
45 20 0.14
46 36 0.25
47 1 0.01
49 33 0.23
50 31 0.22
51 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTACGAGATGAGAGCC
Found at i:52475533 original size:21 final size:21
Alignment explanation
Indices: 52475483--52475536 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
52475473 CGGGTGTGGG
* *
52475483 ACACGGGCCTGTTACCCTTCG
1 ACACGGGCGTGTTACCCTTCC
*
52475504 ACATGGGCGTGTTACCCTTCC
1 ACACGGGCGTGTTACCCTTCC
52475525 ACACGGGCGTGT
1 ACACGGGCGTGT
52475537 GCCCTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.24
Consensus pattern (21 bp):
ACACGGGCGTGTTACCCTTCC
Found at i:52478242 original size:26 final size:25
Alignment explanation
Indices: 52478212--52478293 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
52478202 TGTGATCACG
52478212 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGG-TACTA
* * * *
52478238 TGTGTATTA-GATGGTG-AGGTCAC-G
1 TGTGTAGTACTA-AGTGCAGGT-ACTA
52478262 TGTGTAGTACTAAGTGCAGGTTACTA
1 TGTGTAGTACTAAGTGCAGG-TACTA
*
52478288 CGTGTA
1 TGTGTA
52478294 CCAGACTGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 12 0.29
25 12 0.29
26 17 0.41
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.33
Consensus pattern (25 bp):
TGTGTAGTACTAAGTGCAGGTACTA
Found at i:52478287 original size:50 final size:51
Alignment explanation
Indices: 52478150--52478294 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 51
52478140 ATGATCTATT
* * * *
52478150 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGAAAA
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGAAAA
* * * * **
52478201 CTGTGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAG-ATG
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGAAAA
* *
52478251 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTAC
1 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
52478295 CAGACTGTTG
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 39 0.50
51 39 0.50
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (51 bp):
GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGAAAA
Found at i:52483876 original size:21 final size:21
Alignment explanation
Indices: 52483851--52483892 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
52483841 AATAGTGGGA
52483851 TTTTGGAGTTGCTATATGAGT
1 TTTTGGAGTTGCTATATGAGT
52483872 TTTTGGAGTTGCTATATGAGT
1 TTTTGGAGTTGCTATATGAGT
52483893 AAAAAGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTTGGAGTTGCTATATGAGT
Found at i:52484512 original size:46 final size:47
Alignment explanation
Indices: 52484395--52484567 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 47
52484385 ACATTATGAG
* * *
52484395 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATTGAGACGATG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGATA
* * *
52484444 A-CCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGGGAC-ATA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGATA
* *
52484489 AGCCAATGTAAGACATGTCTGGGACATGCATCGGC--T-ACGA-GATG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGA-GACGATA
* *
52484533 TGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
52484568 ACACCTTACC
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
44 15 0.14
45 17 0.16
46 49 0.46
47 13 0.12
48 11 0.10
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGATA
Found at i:52484884 original size:13 final size:13
Alignment explanation
Indices: 52484866--52484896 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
52484856 CACACACCTG
52484866 TGTGGTCAGGCCA
1 TGTGGTCAGGCCA
52484879 TGTGGTCAGGCCA
1 TGTGGTCAGGCCA
52484892 TGTGG
1 TGTGG
52484897 CTCATATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.19, G:0.42, T:0.26
Consensus pattern (13 bp):
TGTGGTCAGGCCA
Found at i:52498992 original size:136 final size:136
Alignment explanation
Indices: 52498748--52499019 Score: 454
Period size: 136 Copynumber: 2.0 Consensus size: 136
52498738 GATTTAATTG
* * *
52498748 AAAAGGTTCCTAAATATGCCAAATATTTAAAAGAAATCATGTTCAGGCAAAGGAAAATAAAAATA
1 AAAAGGTTCCTAAATATGCCAAATATTTAAAAGAAATCATGTCCAGGAAAAGGAAAATAAAAACA
* * *
52498813 AGAGAGCAAGTTAACTTAAGTGCCTCATGTAGTGTGATTATATCTAAACAGATGCCCCCAAAACT
66 AGAGAGAAAGTTAACGTAAGTGCCTCATGTAGTGCGATTATATCTAAACAGATGCCCCCAAAACT
52498878 AAAAAA
131 AAAAAA
* *
52498884 AAAAGGTTCCTAAATATGCCAAATATTTAAAAGAAATCATGTCCAGGAAAATGAAATTAAAAACA
1 AAAAGGTTCCTAAATATGCCAAATATTTAAAAGAAATCATGTCCAGGAAAAGGAAAATAAAAACA
* *
52498949 AGAGAGAAAGTTAACGTAAGTGCCTCATGTAGTGCGATTATATCTAAACAGATGCTCTCAAAACT
66 AGAGAGAAAGTTAACGTAAGTGCCTCATGTAGTGCGATTATATCTAAACAGATGCCCCCAAAACT
52499014 AAAAAA
131 AAAAAA
52499020 CCCAAGGAGT
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
136 126 1.00
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (136 bp):
AAAAGGTTCCTAAATATGCCAAATATTTAAAAGAAATCATGTCCAGGAAAAGGAAAATAAAAACA
AGAGAGAAAGTTAACGTAAGTGCCTCATGTAGTGCGATTATATCTAAACAGATGCCCCCAAAACT
AAAAAA
Found at i:52501266 original size:50 final size:50
Alignment explanation
Indices: 52501185--52501315 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
52501175 GTATGTGGCG
* * *
52501185 GTATATCTGCATATCAGTGATAGC-TAGTCCACAAAGTGTTATAAATGGTA
1 GTATATCTGCATATTAGTGGTGGCTTA-TCCACAAAGTGTTATAAATGGTA
* * *
52501235 GTATATTTGCATATTAGTGGTGGCTTATCCACAAAGTGTTATTAGTGGTA
1 GTATATCTGCATATTAGTGGTGGCTTATCCACAAAGTGTTATAAATGGTA
* * * * *
52501285 GTTTATCTACAAATTATTGGTGGCTTGTCCA
1 GTATATCTGCATATTAGTGGTGGCTTATCCA
52501316 TAAATGGTGA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 66 0.97
51 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (50 bp):
GTATATCTGCATATTAGTGGTGGCTTATCCACAAAGTGTTATAAATGGTA
Found at i:52501301 original size:25 final size:26
Alignment explanation
Indices: 52501246--52501307 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
52501236 TATATTTGCA
*
52501246 TATTAGTGGTGGCTTATCCACAAAGTGT
1 TATTAGTGGTAGCTTATCCACAAA--GT
* *
52501274 TATTAGTGGTAGTTTATCTACAAA-T
1 TATTAGTGGTAGCTTATCCACAAAGT
*
52501299 TATTGGTGG
1 TATTAGTGG
52501308 CTTGTCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 9 0.30
28 21 0.70
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (26 bp):
TATTAGTGGTAGCTTATCCACAAAGT
Found at i:52502277 original size:16 final size:16
Alignment explanation
Indices: 52502256--52502288 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52502246 AAAACTATAG
52502256 ACTATAG-ATTCTGAAA
1 ACTATAGAATT-TGAAA
52502272 ACTATAGAATTTGAAA
1 ACTATAGAATTTGAAA
52502288 A
1 A
52502289 ATCTAGACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (16 bp):
ACTATAGAATTTGAAA
Found at i:52504043 original size:37 final size:37
Alignment explanation
Indices: 52503984--52504055 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
52503974 AGCTCAGACG
*
52503984 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* *
52504021 AAATCTCTACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
52504056 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:52504259 original size:48 final size:48
Alignment explanation
Indices: 52504205--52504577 Score: 497
Period size: 48 Copynumber: 7.8 Consensus size: 48
52504195 CATCGCCTAC
52504205 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
*
52504253 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
*
52504301 ATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
* ** *
52504349 ATATTTCACA-TTGACCATTATGCTTTACCACATATACATATCTCATAC
1 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATAT
*
52504397 ATATTTCACACTAGGCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATAT
* * *
52504447 ATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCATAC
1 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATAT
* * * *
52504495 ATATTTCACATTAGCCATTAGGCTTTACCTCATATATGCATGT-TCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATAT
* *
52504544 -TCA--TCACATTGGCCATTCGGCTTTACCACATATA
1 AT-ATTTCACACTAGCCATTCGGCTTTACCACATATA
52504578 TGCATGTTCA
Statistics
Matches: 290, Mismatches: 26, Indels: 19
0.87 0.08 0.06
Matches are distributed among these distances:
47 30 0.10
48 203 0.70
49 12 0.04
50 45 0.16
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
Found at i:52504310 original size:96 final size:96
Alignment explanation
Indices: 52504202--52504577 Score: 564
Period size: 96 Copynumber: 3.9 Consensus size: 96
52504192 GCACATCGCC
*
52504202 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACACT-A
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTGA
52504266 GCCATTCGGCTTTACCACATATACATATCTCA
66 -CCATTCGGCTTTACCACATATACATATCTCA
*
52504298 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTGA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTGA
**
52504363 CCATTATGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
*
52504394 TACATATTTCACACTAGGCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATTTCACATT
*
52504459 GACCATTCGGCTTTACCACATATGCATATCTCA
64 GACCATTCGGCTTTACCACATATACATATCTCA
* * * *
52504492 TACATATTTCACATTAGCCATTAGGCTTTACCTCATATATGCATGT-TCATAT-TCA--TCACAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATATAT-ATTTCACAT
*
52504553 TGGCCATTCGGCTTTACCACATATA
63 TGACCATTCGGCTTTACCACATATA
52504578 TGCATGTTCA
Statistics
Matches: 258, Mismatches: 16, Indels: 13
0.90 0.06 0.05
Matches are distributed among these distances:
95 29 0.11
96 136 0.53
97 6 0.02
98 81 0.31
99 2 0.01
100 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTGA
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:52504566 original size:47 final size:47
Alignment explanation
Indices: 52504500--52504787 Score: 423
Period size: 47 Copynumber: 6.1 Consensus size: 47
52504490 CATACATATT
* * * * * *
52504500 TCACATTAGCCATTAGGCTTTACCTCATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
52504547 TCACATTGGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
52504594 TCACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
52504641 TCACATTGGCTATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52504688 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
52504735 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
52504782 TCACAT
1 TCACAT
52504788 AAAATCCTAA
Statistics
Matches: 223, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 223 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:52504642 original size:94 final size:94
Alignment explanation
Indices: 52504452--52504787 Score: 417
Period size: 94 Copynumber: 3.6 Consensus size: 94
52504442 TATATATATT
* * * *
52504452 TCACATTGACCATTCGGCTTTACCAC--ATATGCATATCTCATACATAT-TTCACATTAGCCATT
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATAT-TC--ACAT-TCATCACATTGGCCATT
* * * * *
52504514 AGGCTTTACCTCATATATGCATGTTCATATTCA
62 CGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
52504547 TCACATTGGCCATTCGGCTTTACCACATATATGCATGTTCATATTCATCACATTGGCCATTCGAC
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCATCACATTGGCCATTCGGC
* *
52504612 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACATATATGCATGTTCACATTCA
* * *
52504641 TCACATTGGCTATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCATCACATTGGCCATTCGGC
52504706 CTTATCACATATATGCATGTTCACATTCA
66 CTTATCACATATATGCATGTTCACATTCA
* * * *
52504735 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCATCACAT
52504788 AAAATCCTAA
Statistics
Matches: 213, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
93 1 0.00
94 176 0.83
95 25 0.12
96 2 0.01
97 9 0.04
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTACCACATATATGCATATTCACATTCATCACATTGGCCATTCGGC
CTTATCACATATATGCATGTTCACATTCA
Found at i:52509883 original size:50 final size:50
Alignment explanation
Indices: 52509806--52510042 Score: 276
Period size: 50 Copynumber: 4.7 Consensus size: 50
52509796 TGATCCTTTA
* *
52509806 TTAGAACACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATTG
1 TTAGATCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
* * ** * *
52509856 TTAGATCGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAG
1 TTAGATCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
* * * * * *
52509906 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGG
1 -TTAGATCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
* * *
52509957 TTAGGTCACGTGTGTAGTACTAAGTGTCGGCTACTACGTGTACCAGATTG
1 TTAGATCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
* * * *
52510007 TTAGGTCTCATGTGTAGTACTAAGTGCAAGCTACTA
1 TTAGATCACATGTGTAGTACTAAGTGTAGGCTACTA
52510043 TGCATACTAG
Statistics
Matches: 155, Mismatches: 31, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
50 116 0.75
51 39 0.25
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
TTAGATCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG
Found at i:52509991 original size:101 final size:100
Alignment explanation
Indices: 52509806--52510042 Score: 285
Period size: 101 Copynumber: 2.4 Consensus size: 100
52509796 TGATCCTTTA
* * * * * *
52509806 TTAGAACACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATTGTTAGATCGCATGTGT
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGATCACATGTGT
* *
52509871 AGTACTAAGTGTAGGCTACTATGCATACCCGATAG
66 AGTACTAAGTGTAGGCTACTACGCATACCAGATAG
* * * * *
52509906 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTG
1 -TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGATCACATGTG
* ** *
52509971 TAGTACTAAGTGTCGGCTACTACGTGTACCAGATTG
65 TAGTACTAAGTGTAGGCTACTACGCATACCAGATAG
* * *
52510007 TTAGGTCTCATGTGTAGTACTAAGTGCAAGCTACTA
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTA
52510043 TGCATACTAG
Statistics
Matches: 114, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
100 31 0.27
101 83 0.73
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (100 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGATCACATGTGT
AGTACTAAGTGTAGGCTACTACGCATACCAGATAG
Found at i:52511776 original size:73 final size:73
Alignment explanation
Indices: 52511671--52511817 Score: 258
Period size: 73 Copynumber: 2.0 Consensus size: 73
52511661 ATAATTGAGG
*
52511671 ATGTTGAATGCTTCTGGATCCATGTTTTTGTGTGTGCATGTAAAAGGTGACAAAAAGGCTTAAAA
1 ATGTTGAATGCTTCTGGATCCATGTTTGTGTGTGTGCATGTAAAAGGTGACAAAAAGGCTTAAAA
52511736 AATAGCCT
66 AATAGCCT
* **
52511744 ATGTTGAATGCTTCTGGATCCATGTTTGTGTGTGTGCATGTAAAGGGTGACAAAAAGGCTTGGAA
1 ATGTTGAATGCTTCTGGATCCATGTTTGTGTGTGTGCATGTAAAAGGTGACAAAAAGGCTTAAAA
52511809 AATAGCCT
66 AATAGCCT
52511817 A
1 A
52511818 CGTGCTGGCC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (73 bp):
ATGTTGAATGCTTCTGGATCCATGTTTGTGTGTGTGCATGTAAAAGGTGACAAAAAGGCTTAAAA
AATAGCCT
Found at i:52515619 original size:50 final size:50
Alignment explanation
Indices: 52515560--52515656 Score: 176
Period size: 50 Copynumber: 1.9 Consensus size: 50
52515550 TGGAAGTATA
52515560 TGGTAGTATATCTGCATATCAGTGGTGGCTAGTCCACAAAGTGTTATAAG
1 TGGTAGTATATCTGCATATCAGTGGTGGCTAGTCCACAAAGTGTTATAAG
* *
52515610 TGGTAGTATATCTGCATATCAGTGGTGGCTTGTCCACAATGTGTTAT
1 TGGTAGTATATCTGCATATCAGTGGTGGCTAGTCCACAAAGTGTTAT
52515657 CAAAGGCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (50 bp):
TGGTAGTATATCTGCATATCAGTGGTGGCTAGTCCACAAAGTGTTATAAG
Found at i:52515911 original size:16 final size:16
Alignment explanation
Indices: 52515873--52515904 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52515863 TATATTTTGG
*
52515873 TATGTTTATGAATATA
1 TATGTATATGAATATA
52515889 TATGTATATGAATATA
1 TATGTATATGAATATA
52515905 CTTGTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
TATGTATATGAATATA
Found at i:52527101 original size:33 final size:34
Alignment explanation
Indices: 52527041--52527106 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
52527031 GAGCATAGTA
52527041 AAGGTTCGGCTAGGCTTAGGTAACCAAAAAAATC
1 AAGGTTCGGCTAGGCTTAGGTAACCAAAAAAATC
52527075 AAGGTTCGGCTAGGCTT-GGTAACCAAAAAAAT
1 AAGGTTCGGCTAGGCTTAGGTAACCAAAAAAAT
52527107 TTATTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 15 0.47
34 17 0.53
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (34 bp):
AAGGTTCGGCTAGGCTTAGGTAACCAAAAAAATC
Found at i:52534778 original size:24 final size:24
Alignment explanation
Indices: 52534751--52534799 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
52534741 AGGGACTTGT
52534751 TTGTAAAAGTGTAAAAGAGAATAG
1 TTGTAAAAGTGTAAAAGAGAATAG
52534775 TTGTAAAAGTGTAAAAGAGAATAG
1 TTGTAAAAGTGTAAAAGAGAATAG
52534799 T
1 T
52534800 AATAATGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (24 bp):
TTGTAAAAGTGTAAAAGAGAATAG
Found at i:52534894 original size:35 final size:35
Alignment explanation
Indices: 52534845--52534913 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
52534835 GAGCATAGTA
52534845 AAGGTTCGGCTAGGCTTGGGTAACCAAAAAAATTC
1 AAGGTTCGGCTAGGCTTGGGTAACCAAAAAAATTC
*
52534880 AAGGTTCGGTTAGGCTTGGGTAACCAAAAAAATT
1 AAGGTTCGGCTAGGCTTGGGTAACCAAAAAAATT
52534914 TATTCATTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (35 bp):
AAGGTTCGGCTAGGCTTGGGTAACCAAAAAAATTC
Found at i:52537387 original size:16 final size:16
Alignment explanation
Indices: 52537362--52537420 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
52537352 ATTTATCAGT
*
52537362 AAAAGCTGAAATGCTG
1 AAAAGCTGAAATGCCG
* *
52537378 AAATGCTGAAATGCCA
1 AAAAGCTGAAATGCCG
52537394 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
*
52537410 AAAAGCCGAAA
1 AAAAGCTGAAA
52537421 GTTTGGCTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:52537420 original size:8 final size:8
Alignment explanation
Indices: 52537366--52537412 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
52537356 ATCAGTAAAA
52537366 GCTGAAAT
1 GCTGAAAT
52537374 GCTGAAAT
1 GCTGAAAT
52537382 GCTGAAAT
1 GCTGAAAT
** *
52537390 GCCAAAAA
1 GCTGAAAT
52537398 GCTGAAAT
1 GCTGAAAT
*
52537406 GCCGAAA
1 GCTGAAA
52537413 AGCCGAAAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (8 bp):
GCTGAAAT
Found at i:52537686 original size:29 final size:29
Alignment explanation
Indices: 52537631--52537774 Score: 175
Period size: 29 Copynumber: 5.0 Consensus size: 29
52537621 GTGAGCATGA
* * *
52537631 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
52537659 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
52537688 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
52537717 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
52537746 ATATGAATATGA-TTGGGCTTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
52537774 A
1 A
52537775 GACACAGGTA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 26 0.25
29 78 0.75
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:52541869 original size:16 final size:16
Alignment explanation
Indices: 52541827--52541863 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
52541817 ATGTATTGGC
52541827 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
52541843 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
52541859 AAAAG
1 AAAAG
52541864 TCGAAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.11
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:52542135 original size:29 final size:28
Alignment explanation
Indices: 52542080--52542194 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
52542070 GTGAGCATGA
* * *
52542080 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
52542108 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
52542137 ATATACAGGTGATTTGGGCCTAATTGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
52542166 ATATGAATATGATTGGGCTTAGTGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
52542194 A
1 A
52542195 AATATAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 25 0.34
29 48 0.66
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:52542166 original size:58 final size:56
Alignment explanation
Indices: 52542093--52542208 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 56
52542083 TGAATGTGAC
* *
52542093 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAAATACAGGT-ATT
** * * * *
52542151 TGGGCCTAATTGGCCATATGAATATGATTGGGCTTAGTGGGCCAAATATAGGTATT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAAATACAGGTATT
52542207 TG
1 TG
52542209 AAATTGTTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
56 5 0.10
57 22 0.44
58 23 0.46
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (56 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAAATACAGGTATT
Found at i:52547522 original size:47 final size:48
Alignment explanation
Indices: 52547459--52547678 Score: 183
Period size: 47 Copynumber: 4.7 Consensus size: 48
52547449 ATTGTGGGCT
52547459 AGTGTAAG-ACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGAACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *
52547505 AGTGTAAGAACATGTCTGGGACATGGCATCGG---CATTGAGATGAGTGCT
1 AGTGTAAGAACATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
* * * * *
52547553 AGTGTAAG-ACATGTCTGGGACAT-GCATCGACTAC-TAGATGATAGTC
1 AGTGTAAGAACATGTCTGGGACATGGCATCGGCCACAT-TATGAGAGCC
* * * *
52547599 AGTGTAAGACCATGTATGGGACATGGCATCGACTTCAGA-TAT--GAGCC
1 AGTGTAAGAACATGTCTGGGACATGGCATCGGC--CACATTATGAGAGCC
* * *
52547646 AGTGTAAGACCATGTTTGGTACATGGCATCGGC
1 AGTGTAAGAACATGTCTGGGACATGGCATCGGC
52547679 ACTCTATCCC
Statistics
Matches: 142, Mismatches: 18, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
45 4 0.03
46 27 0.19
47 76 0.54
48 31 0.22
49 3 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGAACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:52547619 original size:94 final size:94
Alignment explanation
Indices: 52547456--52547629 Score: 269
Period size: 94 Copynumber: 1.9 Consensus size: 94
52547446 GTTATTGTGG
* * *
52547456 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGAACATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGAACATGTA
52547521 TGGGACATGGCATCGGCATTGAGATGAGT
66 TGGGACATGGCATCGGCATTGAGATGAGT
* * * *
52547550 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTAC-TAGATGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAT-GATGAGAGCCAGTGTAAGAACATGT
52547614 ATGGGACATGGCATCG
65 ATGGGACATGGCATCG
52547630 ACTTCAGATA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 1 0.01
94 71 0.99
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGAACATGTA
TGGGACATGGCATCGGCATTGAGATGAGT
Found at i:52547660 original size:94 final size:94
Alignment explanation
Indices: 52547459--52547676 Score: 262
Period size: 94 Copynumber: 2.3 Consensus size: 94
52547449 ATTGTGGGCT
* * *
52547459 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGAACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGAACATGTATGG
* * * *
52547524 GACATGGCATCGGCATTGAGATGAGTGCT
66 GACATGGCATCGACATTCAGATGAGAGCC
* * * *
52547553 AGTGTAAGACATGTCTGGGACATGCATCGACTAC-TAGATGATAGTCAGTGTAAGACCATGTATG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACAT-GATGAGAGCCAGTGTAAGAACATGTATG
52547617 GGACATGGCATCGAC-TTCAGAT-ATGAGCC
65 GGACATGGCATCGACATTCAGATGA-GAGCC
* *
52547646 AGTGTAAGACCATGTTTGGTACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
52547677 GCACTCTATC
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 19 0.18
94 81 0.76
95 6 0.06
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGAACATGTATGG
GACATGGCATCGACATTCAGATGAGAGCC
Found at i:52548987 original size:21 final size:21
Alignment explanation
Indices: 52548961--52549004 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
52548951 TGTCCCGGCG
52548961 TATGATACAGATATGGGGTGT
1 TATGATACAGATATGGGGTGT
52548982 TATGATACAGATATGGGGTGT
1 TATGATACAGATATGGGGTGT
52549003 TA
1 TA
52549005 CAGATAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.34
Consensus pattern (21 bp):
TATGATACAGATATGGGGTGT
Found at i:52554883 original size:93 final size:93
Alignment explanation
Indices: 52554724--52554894 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
52554714 GGATGGTTGA
* *
52554724 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
52554789 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
52554817 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
52554882 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52554895 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52554897 original size:46 final size:46
Alignment explanation
Indices: 52554728--52554899 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
52554718 GGTTGAGCAT
* * *
52554728 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
52554774 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
52554819 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
52554867 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52554900 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 60 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:52558865 original size:37 final size:37
Alignment explanation
Indices: 52558815--52558922 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
52558805 ACCTTTAGCT
* * *
52558815 CAGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
52558852 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
52558889 CGGACATAATCTCCACACGTAGTCATCGAGTCTT
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTT
52558923 TAGAGCTCGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:52559119 original size:47 final size:47
Alignment explanation
Indices: 52559041--52560160 Score: 1770
Period size: 47 Copynumber: 23.6 Consensus size: 47
52559031 CCCTTCGGGA
* * * * * *
52559041 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559088 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52559135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52559182 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52559229 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559276 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559325 CTTATCACATATATACACTTTCACATTCATCATATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559372 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52559421 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52559468 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52559519 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52559565 -----C-C-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52559605 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52559652 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52559699 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559746 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52559795 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559842 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52559891 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52559938 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559989 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52560038 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52560085 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52560134 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
52560161 TATTCAAATA
Statistics
Matches: 1002, Mismatches: 45, Indels: 52
0.91 0.04 0.05
Matches are distributed among these distances:
39 37 0.04
40 1 0.00
41 1 0.00
45 1 0.00
46 1 0.00
47 599 0.60
49 270 0.27
51 92 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52559326 original size:96 final size:94
Alignment explanation
Indices: 52559041--52560160 Score: 1770
Period size: 96 Copynumber: 11.8 Consensus size: 94
52559031 CCCTTCGGGA
* * * * * * * *
52559041 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52559106 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
52559135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
52559200 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
52559229 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
52559294 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559325 CTTATCACATATATACACTTTCACATTCATCATATCGACCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
52559390 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
52559421 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATAT
52559486 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
52559519 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG------C-C-TATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52559576 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
52559605 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
52559670 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
52559699 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
52559764 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
52559795 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
52559860 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
52559891 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATAT
52559956 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52559989 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
52560054 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
52560085 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
52560150 ACTTTCACATT
64 ACTTTCACATT
52560161 TATTCAAATA
Statistics
Matches: 973, Mismatches: 35, Indels: 34
0.93 0.03 0.03
Matches are distributed among these distances:
86 84 0.09
91 1 0.00
92 2 0.00
93 1 0.00
94 232 0.24
96 478 0.49
98 131 0.13
100 44 0.05
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:52559977 original size:470 final size:474
Alignment explanation
Indices: 52559091--52560160 Score: 2004
Period size: 470 Copynumber: 2.2 Consensus size: 474
52559081 ACTCGGCCCT
52559091 GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
1 GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
52559156 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
52559221 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
131 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
52559286 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACAT
196 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACAT
52559351 TCATCATATCGACCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCAT
261 TCATCATATCGACCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCAT
52559416 TCGGCCTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
326 TCGGCCTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
52559481 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACAT
391 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACAT
52559545 TCATCACATCGGCCATTAG
456 TCATCACATCGGCCATTAG
52559564 G-C-C-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
1 GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
52559626 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
52559691 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
131 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
52559756 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACAT
196 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACAT
*
52559821 TCATCATATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCAT
261 TCATCATATCGACCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCAT
52559886 TCGGCCTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
326 TCGGCCTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
52559951 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
391 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACA
* *
52560016 TTCATCACATTGGCCATTCG
455 TTCATCACATCGGCCATTAG
52560036 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 G-----TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
52560101 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
59 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
52560161 TATTCAAATA
Statistics
Matches: 581, Mismatches: 4, Indels: 15
0.97 0.01 0.03
Matches are distributed among these distances:
470 429 0.74
471 1 0.00
472 37 0.06
473 1 0.00
478 1 0.00
479 1 0.00
480 46 0.08
482 65 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (474 bp):
GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACAT
TCATCATATCGACCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCAT
TCGGCCTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACAT
TCATCACATCGGCCATTAG
Found at i:52563436 original size:46 final size:43
Alignment explanation
Indices: 52563345--52563470 Score: 119
Period size: 46 Copynumber: 2.8 Consensus size: 43
52563335 ATTGAGACGA
* * * *
52563345 GTGCCAGCGTAAGACATGTCTGGCACATGTATCGGCCTCAGGAT
1 GTGCCAGTGTAAGACATGTCTGGAACATGCATC-GACTCAGGAT
52563389 GTAAGCCAGTGTAAGACATGTCTGGAACATGCATCGACTGC-GAGAT
1 GT--GCCAGTGTAAGACATGTCTGGAACATGCATCGACT-CAG-GAT
* * *
52563435 GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GTGCCAGTGTAAGA-CATGTCTGGAACAT-GCATCG
52563471 GCACGGATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 13 0.19
45 16 0.23
46 40 0.58
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (43 bp):
GTGCCAGTGTAAGACATGTCTGGAACATGCATCGACTCAGGAT
Found at i:52563498 original size:49 final size:49
Alignment explanation
Indices: 52563256--52563567 Score: 205
Period size: 49 Copynumber: 6.6 Consensus size: 49
52563246 TGTGTGAGCT
* * * *
52563256 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAGCGTC
** ** * * * *
52563302 AACGTAAGACCATGTCTGGGACATGGCATTC-GTATTGA-GACGAGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGGCCTCGATGATGAGCGTC
* * * *
52563350 AGCGTAAGA-CATGTCTGGCACAT-GTATCGGCCTCAGGATG-TAAGC--C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC--GATGATGAGCGTC
* * *
52563396 AGTGTAAGA-CATGTCTGGAACAT-GCATC-GACTGCGA-GAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGATGAGCGTC
* *
52563440 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC-GGAT-ATACAGAGC-T-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGAT---GAGCGTC
* *
52563489 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGATGATCGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAGCGTC
52563538 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
52563568 AACACCTCAC
Statistics
Matches: 207, Mismatches: 33, Indels: 49
0.72 0.11 0.17
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 13 0.06
45 17 0.08
46 47 0.23
47 31 0.15
48 26 0.13
49 67 0.32
50 3 0.01
51 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAGCGTC
Found at i:52570037 original size:15 final size:15
Alignment explanation
Indices: 52570007--52570049 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
52569997 TTAATTTTAT
52570007 ATTATCTTTTTAATATA
1 ATTAT-TTTTT-ATATA
52570024 ATTATTTTTTATATA
1 ATTATTTTTTATATA
*
52570039 ATTATTCTTTA
1 ATTATTTTTTA
52570050 ATTCATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 15 0.60
16 5 0.20
17 5 0.20
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTTTTTATATA
Found at i:52571278 original size:23 final size:23
Alignment explanation
Indices: 52571248--52571319 Score: 110
Period size: 23 Copynumber: 3.1 Consensus size: 23
52571238 AAATTGTTTA
*
52571248 GGGCTGTCAAATTTGGGGATTTT
1 GGGCTGTCGAATTTGGGGATTTT
52571271 GGGCTGTCGAATTTGGGGATTTT
1 GGGCTGTCGAATTTGGGGATTTT
*
52571294 GGG-TGGTTGAATTTGGGGATTTT
1 GGGCT-GTCGAATTTGGGGATTTT
52571317 GGG
1 GGG
52571320 TAAGGGTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 1 0.02
23 45 0.98
ACGTcount: A:0.14, C:0.06, G:0.42, T:0.39
Consensus pattern (23 bp):
GGGCTGTCGAATTTGGGGATTTT
Found at i:52571336 original size:28 final size:28
Alignment explanation
Indices: 52571279--52571376 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 28
52571269 TTGGGCTGTC
52571279 GAATTTGGGGATTTTGGGT---GG--TT
1 GAATTTGGGGATTTTGGGTAAGGGTTTT
52571302 GAATTTGGGGATTTTGGGTAAGGGTTTT
1 GAATTTGGGGATTTTGGGTAAGGGTTTT
* * ** *
52571330 GACTTTGGGAATTTTTGTTTAAGGTTTTT
1 GAATTTGGGGA-TTTTGGGTAAGGGTTTT
* * *
52571359 GATTTTTGAGATTTTGGG
1 GAATTTGGGGATTTTGGG
52571377 GATTGCTCAC
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
23 19 0.33
26 2 0.03
28 16 0.28
29 21 0.36
ACGTcount: A:0.16, C:0.01, G:0.35, T:0.48
Consensus pattern (28 bp):
GAATTTGGGGATTTTGGGTAAGGGTTTT
Found at i:52571988 original size:11 final size:11
Alignment explanation
Indices: 52571974--52572040 Score: 72
Period size: 11 Copynumber: 6.5 Consensus size: 11
52571964 TTTAGGCTTT
52571974 TTTTAAAATAA
1 TTTTAAAATAA
*
52571985 TTTT--AATTA
1 TTTTAAAATAA
*
52571994 TTTTAAAATCA
1 TTTTAAAATAA
52572005 TTTT--AATAA
1 TTTTAAAATAA
*
52572014 TTTT-AAATTA
1 TTTTAAAATAA
52572024 TTTTAAAATAA
1 TTTTAAAATAA
52572035 TTTTAA
1 TTTTAA
52572041 TAATTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
9 16 0.34
10 8 0.17
11 23 0.49
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:52571999 original size:20 final size:20
Alignment explanation
Indices: 52571974--52572040 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
52571964 TTTAGGCTTT
*
52571974 TTTTAAAATAATTTTAATTA
1 TTTTAAAATAATTTTAATAA
*
52571994 TTTTAAAATCATTTTAATAA
1 TTTTAAAATAATTTTAATAA
*
52572014 TTTT-AAATTATTTTAAAATAA
1 TTTTAAAATAATTTT--AATAA
52572035 TTTTAA
1 TTTTAA
52572041 TAATTTCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
19 9 0.22
20 22 0.54
21 9 0.22
22 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAAATAATTTTAATAA
Found at i:52572025 original size:30 final size:30
Alignment explanation
Indices: 52571980--52572057 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
52571970 CTTTTTTTAA
*
52571980 AATAATTTT-AATTATTTTAAAATCATTTT
1 AATAATTTTAAATTATTTTAAAATAATTTT
52572009 AATAATTTTAAATTATTTTAAAATAATTTT
1 AATAATTTTAAATTATTTTAAAATAATTTT
*
52572039 AATAATTTCAAATTCATTT
1 AATAATTTTAAATT-ATTT
52572058 GTTGATGTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 9 0.20
30 32 0.71
31 4 0.09
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
AATAATTTTAAATTATTTTAAAATAATTTT
Found at i:52572044 original size:9 final size:10
Alignment explanation
Indices: 52571974--52572051 Score: 72
Period size: 9 Copynumber: 7.8 Consensus size: 10
52571964 TTTAGGCTTT
52571974 TTTTAAAATAA
1 TTTT-AAATAA
*
52571985 TTTT-AATTA
1 TTTTAAATAA
*
52571994 TTTTAAAATCA
1 TTTT-AAATAA
52572005 TTTT-AATAA
1 TTTTAAATAA
*
52572014 TTTTAAATTA
1 TTTTAAATAA
52572024 TTTTAAAATAA
1 TTTT-AAATAA
52572035 TTTT-AATAA
1 TTTTAAATAA
*
52572044 TTTCAAAT
1 TTTTAAAT
52572052 TCATTTGTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.43
10 11 0.20
11 21 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:52574974 original size:31 final size:31
Alignment explanation
Indices: 52574939--52575000 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
52574929 ATATGTGTTA
*
52574939 GGCTTTTGGATTCAAATTGAGTTGCATTATG
1 GGCTTTTAGATTCAAATTGAGTTGCATTATG
52574970 GGCTTTTAGATTCAAATTGAGTTGCATTATG
1 GGCTTTTAGATTCAAATTGAGTTGCATTATG
52575001 CTATGTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (31 bp):
GGCTTTTAGATTCAAATTGAGTTGCATTATG
Found at i:52578130 original size:29 final size:29
Alignment explanation
Indices: 52578094--52578154 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
52578084 TATAAAAGAT
*
52578094 ATTGGGCCTAATGGGCCATATGAATGTGA
1 ATTGGGCCTAATGGGCCATATGAACGTGA
*
52578123 ATTGGGCCTGATGGGCCATATGAACGTGA
1 ATTGGGCCTAATGGGCCATATGAACGTGA
52578152 ATT
1 ATT
52578155 AGGCGGATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
ATTGGGCCTAATGGGCCATATGAACGTGA
Found at i:52578510 original size:26 final size:26
Alignment explanation
Indices: 52578458--52578510 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
52578448 AAAACCGCAA
* *
52578458 TAAGGGAAAAATTACCAAAATGCCCC
1 TAAGGGAAAAATGACCAAAATGACCC
52578484 TAAGGGCAAAAATGACCAAAAT-ACCC
1 TAAGGG-AAAAATGACCAAAATGACCC
52578510 T
1 T
52578511 TATGTGTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (26 bp):
TAAGGGAAAAATGACCAAAATGACCC
Found at i:52585916 original size:29 final size:29
Alignment explanation
Indices: 52585842--52585988 Score: 124
Period size: 29 Copynumber: 5.2 Consensus size: 29
52585832 GTGAGCATGA
* *
52585842 ATAT-AATGTGATTTGGGCC-AGATAGGCC
1 ATATGAATGTGAATTGGGCCTA-ATGGGCC
*
52585870 ATAT-AAAG-GAGATTGGGCCTAATGGGCC
1 ATATGAATGTGA-ATTGGGCCTAATGGGCC
* *
52585898 ATAGGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * **
52585927 ATATGAACGTGAATTCGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * * *
52585956 ATATAAATGAG-ATTAGGCCTAGTGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
52585984 ATATG
1 ATATG
52585989 CATGGATGTA
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
27 2 0.02
28 40 0.41
29 53 0.55
30 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Found at i:52587114 original size:245 final size:245
Alignment explanation
Indices: 52586684--52587176 Score: 968
Period size: 245 Copynumber: 2.0 Consensus size: 245
52586674 TTTTGCGAAA
52586684 ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
1 ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
*
52586749 CCAAATTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
66 CCAAAATATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
52586814 GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATG
131 GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATG
52586879 TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTAG
196 TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTAG
52586929 ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
1 ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
52586994 CCAAAATATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
66 CCAAAATATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
52587059 GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATG
131 GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATG
*
52587124 TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTGG
196 TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTAG
52587174 ACT
1 ACT
52587177 TGCATGTCAA
Statistics
Matches: 246, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
245 246 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (245 bp):
ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
CCAAAATATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATG
TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTAG
Found at i:52589094 original size:29 final size:29
Alignment explanation
Indices: 52589061--52589118 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
52589051 TCAAAGCTTA
52589061 GTTGGTCTAGTTTCTTATAAAAGAGACCG
1 GTTGGTCTAGTTTCTTATAAAAGAGACCG
52589090 GTTGGTCTAGTTTCTTATAAAAGAGACCG
1 GTTGGTCTAGTTTCTTATAAAAGAGACCG
52589119 TGGAAGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (29 bp):
GTTGGTCTAGTTTCTTATAAAAGAGACCG
Found at i:52589706 original size:48 final size:48
Alignment explanation
Indices: 52589637--52590068 Score: 693
Period size: 48 Copynumber: 9.0 Consensus size: 48
52589627 AGATAAATAT
* * *
52589637 ATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
52589685 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
52589733 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
52589781 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
52589829 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGACGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
52589877 ATATGTATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
52589925 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
52589973 ATATATGTGTGATATGTATATGTGGTAAAGTCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
52590021 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
52590069 TGTTGTAACA
Statistics
Matches: 355, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 355 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:52589897 original size:144 final size:144
Alignment explanation
Indices: 52589637--52590068 Score: 801
Period size: 144 Copynumber: 3.0 Consensus size: 144
52589627 AGATAAATAT
* * *
52589637 ATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTGTGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
52589702 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
52589767 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
52589781 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
* *
52589846 ATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAACCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
52589911 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
52589925 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
* *
52589990 ATATGTGGTAAAGTCGAATGGCGAATGTGAAATATGTATGAGATATGAATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
52590055 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
52590069 TGTTGTAACA
Statistics
Matches: 279, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 279 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (144 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAA
Found at i:52590163 original size:37 final size:37
Alignment explanation
Indices: 52590113--52590220 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
52590103 GGAAATATAT
*
52590113 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52590150 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
52590187 TCCAGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
52590221 GCGTCTGAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52592976 original size:15 final size:15
Alignment explanation
Indices: 52592954--52592987 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52592944 ATAAACAAGC
52592954 CAAAAATAAGAA-AA
1 CAAAAATAAGAATAA
52592968 CAAATAATAAGAATAA
1 CAAA-AATAAGAATAA
52592984 CAAA
1 CAAA
52592988 CTAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (15 bp):
CAAAAATAAGAATAA
Found at i:52593060 original size:3 final size:3
Alignment explanation
Indices: 52593054--52593113 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
52593044 AAAATTTAAG
* * * * **
52593054 AAT AAT AAT ATT AAT AAT AAT GAT GAT GAT TTT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52593101 AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AA
52593114 GATAAATGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:52593997 original size:18 final size:18
Alignment explanation
Indices: 52593970--52594004 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52593960 TTTTTGAAAT
*
52593970 GAAAACAAAAATAAAAAA
1 GAAAAAAAAAATAAAAAA
52593988 GAAAAAAAAAATAAAAA
1 GAAAAAAAAAATAAAAA
52594005 GCTACCTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.86, C:0.03, G:0.06, T:0.06
Consensus pattern (18 bp):
GAAAAAAAAAATAAAAAA
Found at i:52594694 original size:26 final size:26
Alignment explanation
Indices: 52594665--52594772 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52594655 TGGTACAAAT
52594665 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52594691 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52594717 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52594743 TGATAATGGGTCAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52594769 TGAT
1 TGAT
52594773 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52596283 original size:26 final size:26
Alignment explanation
Indices: 52596254--52596306 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
52596244 TTTACAGTTT
*
52596254 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
52596280 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
52596306 T
1 T
52596307 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:52597470 original size:29 final size:29
Alignment explanation
Indices: 52597425--52597483 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
52597415 TTACACTTAC
52597425 AGTTGATATTTACAATAAATAATTGAATT
1 AGTTGATATTTACAATAAATAATTGAATT
*
52597454 AGTTGATA-TTAGGAATAAATAATTGAATT
1 AGTTGATATTTA-CAATAAATAATTGAATT
52597483 A
1 A
52597484 AATTATAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.39
Consensus pattern (29 bp):
AGTTGATATTTACAATAAATAATTGAATT
Found at i:52600920 original size:47 final size:49
Alignment explanation
Indices: 52600816--52600926 Score: 147
Period size: 50 Copynumber: 2.3 Consensus size: 49
52600806 TGTGTGAGTA
**
52600816 TAAGACCATGTCTGGGACATGGCATCAGCACTCATACGTGGAAGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCA-CACTCATACGTGGAAGCCAGTG
*
52600866 TAAGACCATGTCTGGGACATGGCATCA-ACTTA-ACGT-GAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCACACTCATACGTGGA-AGCCAGTG
*
52600913 TAAGACCAAGTCTG
1 TAAGACCATGTCTG
52600927 TGATAGAGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
46 2 0.04
47 23 0.41
48 4 0.07
50 27 0.48
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCACACTCATACGTGGAAGCCAGTG
Found at i:52602596 original size:46 final size:45
Alignment explanation
Indices: 52602452--52602620 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 45
52602442 TTTGTGTGCT
* * **
52602452 AGTGTAAGACATGTCTAGGACATCCATCAACCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-TTGATGAGAGCC
* *
52602498 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCTTGAT--GAGAGCC
*
52602546 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCTTGATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CTTGATGAGAGCC
52602592 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
52602621 ACTACATGAT
Statistics
Matches: 107, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.02
46 52 0.49
47 29 0.27
48 24 0.22
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCTTGATGAGAGCC
Done.